Pajek Writer – software for generation of structural representation of biochemical processes in format Pajek on a set of the proceeding reactions presented in the form of the list of biochemical reactions.
CellPublisher is a free and open program to make highly interactive representations of biochemical processes. It converts a file created in the popular modelling tool CellDesigner into a Google maps-based version inside a browser.
::DEVELOPER
Lope A. Flórez, Christoph R. Lammers, Raphael Michna and Jörg Stülke, Department of General Microbiology, Georg-August University
BioSPI is a computer application we have developed for simulating the behavior of biochemical systems specified in the pi calculus. It is based on the Logix system, which implements Flat Concurrent Prolog (FCP). The use of FCP allows both mobility and synchronized communication, two of the major features of the pi-calculus. To the best of our knowledge this is the only implementation of the full synchronous calculus, including mixed choice.